JBrowse 1

JBrowse 1.15.2 maintenance release

August 16, 2018

JBrowse 1.15.2 has been released! This contains a couple nice features including estimating feature density directly from the index file of BAM, VCF, and other tabix formats. We also updated the website with a new blogging and documentation platform! Please try it out and give us feedback.

Enjoy browsing!

Minor improvements

  • Created "index stats estimation" which overrides the older "global stats estimation" that randomly samples genomic regions of BAM, VCF, etc to find feature density. This allows initial track load to be faster automatically. (issue #1092, issue #1167, @cmdcolin)

  • Removed the "full" or "dev" releases from the build. If you need a "dev" release, you can simply download the JBrowse "source code" link from the GitHub releases page, or use a git clone of the JBrowse repository. This will behave the same as the "dev" release. (issue #1160, issue #1170, @cmdcolin)

  • JBrowse now uses a new binary-file caching and fetching backend based on the http-range-fetcher and tenacious-fetch npm modules. Users may see slightly higher performance when viewing indexed binary formats such as BAM, CRAM, 2bit, etc. (issue #1155, issue #1175, issue #1165, @rbuels)

  • Updated the main jbrowse.org website to use the docusaurus platform. The main docs for the website are now moved from the GMOD.org server to jbrowse.org. You can find the latest documentation in the header bar. We hope you will enjoy this upgrade! There is also a new quick start guide based on setting up JBrowse with indexed file formats. (issue #1153, issue #1137, issue #1173, @cmdcolin)

Bug fixes

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